dolfin team mailing list archive

[Aron Wahlberg <aron.wahlberg@xxxxxxxxx>]

Finally...

I have now managed to install FEniCS, but without trilinos and scotch  
(as you recommended Anders Logg).

I have tried running the demo provided on the homepage but run into  
some errors, lots of them about malloc.
I have then tried to run the different lines from the demo  
separateley - you'll see it below.  Do you see what I need to do?

E.g. what to do about this:
"C API version mismatch for module _cpp: This Python has API version  
1013, module _cpp has version 1012"?

Aron

######################################################################## 
####################

>>> from dolfin import*
/Users/aronwahlberg/Work/FEniCS/build/lib/python2.5/site-packages/ 
dolfin/cpp.py:7: RuntimeWarning: Python
C API version mismatch for module _cpp: This Python has API version  
1013, module _cpp has version 1012.
  import _cpp
>>> mesh = UnitSquare(32,32)
Checking mesh ordering (finished).
>>> V = FunctionSpace(mesh, "CG", 1)
python(5057) malloc: ***  Deallocation of a pointer not malloced:  
0xa0b0da94; This could be a double free
), or free() called with the middle of an allocated block; Try  
setting environment variable MallocHelp to
see tools to help debug
>>> class DirichletBoundary(SubDomain):
... def inside(self, x, on_boundary):
  File "<stdin>", line 2
    def inside(self, x, on_boundary):
      ^
IndentationError: expected an indented block
>>> class DirichletBoundary(SubDomain):
...     def inside(self, x, on_boundary):
...             return x[0] < DOLFIN_EPS or x[0] >1.0-DOLFIN_EPS
...
>>> u0 = Constant(mesh, 0.0)
python(5057) malloc: ***  Deallocation of a pointer not malloced:  
0xa0b0da94; This could be a double free
), or free() called with the middle of an allocated block; Try  
setting environment variable MallocHelp to
see tools to help debug
/Users/aronwahlberg/.instant/cache/ 
dolfin_compile_function_c2c6ca28e8e29b2498da8bbcedb6ff5e/dolfin_compil
_function_c2c6ca28e8e29b2498da8bbcedb6ff5e.py:7: RuntimeWarning:  
Python C API version mismatch for module
_dolfin_compile_function_c2c6ca28e8e29b2498da8bbcedb6ff5e: This  
Python has API version 1013, module _dolf
n_compile_function_c2c6ca28e8e29b2498da8bbcedb6ff5e has version 1012.
  import _dolfin_compile_function_c2c6ca28e8e29b2498da8bbcedb6ff5e
>>> bc = DirichletBV(V, u0, DirichletBoundary())
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
NameError: name 'DirichletBV' is not defined
>>> bc = DirichletBC(V, u0, DirichletBoundary())
>>> v = TestFunction(V)
>>> u = TrialFunction(V)
>>> f = Function(V, "500.0 * exp(-(pow(x[0] - 0.5, 2) + pow(x[1] -  
0.5,2)) / 0.02)")
Calling just-in-time (JIT) compiler, this may take some time...
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/Users/aronwahlberg/Work/FEniCS/build/lib/python2.5/site- 
packages/dolfin/function.py", line 498,
n __new__
    cpp_base = compile_function([cpparg],[defaults])[0]
  File "/Users/aronwahlberg/Work/FEniCS/build/lib/python2.5/site- 
packages/dolfin/compile_function.py", li
e 335, in compile_function
    function_classes = compile_function_code("\n\n".join 
(code_snippets),classnames)
  File "/Users/aronwahlberg/Work/FEniCS/build/lib/python2.5/site- 
packages/dolfin/compile_function.py", li
e 222, in compile_function_code
    (includes, flags, libraries, libdirs) =  
instant.header_and_libs_from_pkgconfig("dolfin")
  File "/Users/aronwahlberg/Work/FEniCS/build/lib/python2.5/site- 
packages/instant/config.py", line 13, in
header_and_libs_from_pkgconfig
    raise OSError("The pkg-config package is not installed on the  
system.")
OSError: The pkg-config package is not installed on the system.
>>> a = dot(grad(v),grad(u))*dx